Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 23 of 185
Found at i:6569945 original size:12 final size:12
Alignment explanation
Indices: 6569928--6569952 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6569918 AGTAATTTCA
6569928 GGTCGGTTAACC
1 GGTCGGTTAACC
6569940 GGTCGGTTAACC
1 GGTCGGTTAACC
6569952 G
1 G
6569953 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:6571095 original size:10 final size:10
Alignment explanation
Indices: 6571080--6571111 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
6571070 CCACATTAGC
6571080 AAAAAAATT-
1 AAAAAAATTA
6571089 AAAAAAATTA
1 AAAAAAATTA
6571099 AAAAAAATTA
1 AAAAAAATTA
6571109 AAA
1 AAA
6571112 TTAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:6571111 original size:16 final size:16
Alignment explanation
Indices: 6571092--6571122 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6571082 AAAAATTAAA
6571092 AAAATTAAAAAAAATT
1 AAAATTAAAAAAAATT
*
6571108 AAAATTAATAAAAAT
1 AAAATTAAAAAAAAT
6571123 ATCTAGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATTAAAAAAAATT
Found at i:6571122 original size:10 final size:9
Alignment explanation
Indices: 6571080--6571111 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
6571070 CCACATTAGC
6571080 AAAAAAATT
1 AAAAAAATT
6571089 AAAAAAATT
1 AAAAAAATT
6571098 AAAAAAAATT
1 -AAAAAAATT
6571108 AAAA
1 AAAA
6571112 TTAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAAAAATT
Found at i:6582574 original size:24 final size:24
Alignment explanation
Indices: 6582543--6582611 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
6582533 TATTAACATC
*
6582543 GTTCGTGAACATATTCAATTATAT
1 GTTCGTGAACATGTTCAATTATAT
* *
6582567 GTTTGTGAACATGTTCAGTTATAT
1 GTTCGTGAACATGTTCAATTATAT
*
6582591 GTTCGTGAACATGTTCGATTA
1 GTTCGTGAACATGTTCAATTA
6582612 AGTTAAATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.42
Consensus pattern (24 bp):
GTTCGTGAACATGTTCAATTATAT
Found at i:6594638 original size:14 final size:14
Alignment explanation
Indices: 6594602--6594641 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
6594592 AAAAACCCTA
6594602 TTTTTCCTT-TTTC
1 TTTTTCCTTCTTTC
*
6594615 -TTTTCTTTCTTTC
1 TTTTTCCTTCTTTC
6594628 TTTTTCCTTCTTTC
1 TTTTTCCTTCTTTC
6594642 CTTTCTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 12 0.52
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTCCTTCTTTC
Found at i:6594641 original size:27 final size:26
Alignment explanation
Indices: 6594602--6594654 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
6594592 AAAAACCCTA
*
6594602 TTTTTCCTTTTTCTTTTCTTTCTTTC
1 TTTTTCCTTTTTCCTTTCTTTCTTTC
*
6594628 TTTTTCCTTCTTTCCTTTCTTTGTTTC
1 TTTTTCCTT-TTTCCTTTCTTTCTTTC
6594655 GTTTGCCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTTTCCTTTTTCCTTTCTTTCTTTC
Found at i:6594892 original size:20 final size:22
Alignment explanation
Indices: 6594857--6594896 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
6594847 TTTATTTTAC
6594857 ATAATATAATATAATATATTTT
1 ATAATATAATATAATATATTTT
6594879 ATAAT-TAA-ATAATATATT
1 ATAATATAATATAATATATT
6594897 AATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATATAATATAATATATTTT
Found at i:6594915 original size:28 final size:30
Alignment explanation
Indices: 6594857--6594915 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 30
6594847 TTTATTTTAC
* *
6594857 ATAATATAATATAATATATTTTATAATTAA
1 ATAATATAATATAATATATTTTAAAAATAA
6594887 ATAATAT-AT-TAATATA-TTTAAAACATAA
1 ATAATATAATATAATATATTTTAAAA-ATAA
6594915 A
1 A
6594916 AATTTAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 6 0.23
28 11 0.42
29 2 0.08
30 7 0.27
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (30 bp):
ATAATATAATATAATATATTTTAAAAATAA
Found at i:6600904 original size:50 final size:50
Alignment explanation
Indices: 6600676--6600892 Score: 308
Period size: 50 Copynumber: 4.3 Consensus size: 50
6600666 ATTTGGGTAA
* * *
6600676 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
6600726 AGAGGTCCTATGTGAGACCATGTTTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
6600776 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
6600826 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
**
6600876 AGAACTCCCATGTAAGA
1 AGAGGTCCCATGTAAGA
6600893 ATATATTTGG
Statistics
Matches: 145, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 145 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:6600953 original size:49 final size:49
Alignment explanation
Indices: 6600681--6600954 Score: 171
Period size: 50 Copynumber: 5.5 Consensus size: 49
6600671 GGTAAAGAGG
* * * *
6600681 TCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCACCGAGATAAGAG--G
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCA-C--GATAAGAGAAC
* * * * * * **
6600731 TCCTATGTGAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCA-CGATAAGAGAAC
*** * **
6600781 TCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCA-AGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCACGATA-A-GAGAAC
** * *
6600831 TCCCCCGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCA-CGATAAGAGAAC
** * * * *
6600881 TCCCATGTAAGAATATATTTGGGATATGACATTGGTA-GTATAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCACG-ATAAGAGAAC
*
6600929 ATCCTATGTAAGACCATGTCTGGGAC
1 -TCCCATGTAAGACCATGTCTGGGAC
6600955 TTGGCTTTGG
Statistics
Matches: 178, Mismatches: 38, Indels: 17
0.76 0.16 0.07
Matches are distributed among these distances:
48 11 0.06
49 26 0.15
50 138 0.78
51 2 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGACATTGGCACGATAAGAGAAC
Found at i:6606613 original size:17 final size:17
Alignment explanation
Indices: 6606593--6606626 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6606583 ACAAAAGTCT
6606593 TATGCAGATTTAAAAAG
1 TATGCAGATTTAAAAAG
6606610 TATGCAGATTTAAAAAG
1 TATGCAGATTTAAAAAG
6606627 AAAAGAGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (17 bp):
TATGCAGATTTAAAAAG
Found at i:6620462 original size:85 final size:85
Alignment explanation
Indices: 6620304--6620464 Score: 187
Period size: 85 Copynumber: 1.9 Consensus size: 85
6620294 GAAGATCTAC
* * * * * * * *
6620304 ATACTTGTATTGTTGTAGGCATGTTACAAGATCATTCGAAATTGGATTATGACCTTATATCTAAT
1 ATACTTATATTGTTGCAGGCATGTCACAAGACCATCCAAAATTGGATTATGACCTAATATCTAAC
6620369 AATATCTTATGTACGGTGAA
66 AATATCTTATGTACGGTGAA
* * * * *
6620389 ATACTTATGTTGTTGCAGGTATGTCACAAGACCATCCAAAATTGGATTCTGACCTAATCTCTGAC
1 ATACTTATATTGTTGCAGGCATGTCACAAGACCATCCAAAATTGGATTATGACCTAATATCTAAC
* *
6620454 ATTGTCTTATG
66 AATATCTTATG
6620465 GTTAGAATTT
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
85 61 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (85 bp):
ATACTTATATTGTTGCAGGCATGTCACAAGACCATCCAAAATTGGATTATGACCTAATATCTAAC
AATATCTTATGTACGGTGAA
Found at i:6622522 original size:19 final size:19
Alignment explanation
Indices: 6622498--6622589 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
6622488 TCATATCTTT
6622498 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
6622517 TAAGATTACATATCATATC
1 TAAGATTGCATATCATATC
* *
6622536 TAAGATTGCATATCGTACC
1 TAAGATTGCATATCATATC
* *
6622555 TAAGATTACATATCATATA
1 TAAGATTGCATATCATATC
6622574 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
6622590 TGAAGATTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 64 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:6622547 original size:38 final size:38
Alignment explanation
Indices: 6622473--6622589 Score: 162
Period size: 38 Copynumber: 3.0 Consensus size: 38
6622463 AAATTAAATC
*
6622473 TCTAAGATTACAAAATCATATCTTTTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATATC---TAAGATTGCATATCATA
*
6622515 TCTAAGATTACATATCATATCTAAGATTGCATATCGTA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
6622553 CCTAAGATTACATATCATATATAAGATTGCATATCAT
1 TCTAAGATTACATATCATATCTAAGATTGCATATCAT
6622590 TGAAGATTAT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
38 50 0.71
41 9 0.13
42 11 0.16
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:6625210 original size:27 final size:27
Alignment explanation
Indices: 6625152--6625215 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
6625142 TTAGAATACG
* **
6625152 CCACAAAGGCGATCCATAAAGAGTATG
1 CCACAAAGGCGATACATAAAGAGTACA
* * *
6625179 TCACAAAGGCGATACATTAATAGTACA
1 CCACAAAGGCGATACATAAAGAGTACA
6625206 CCACAAAGGC
1 CCACAAAGGC
6625216 TGACAAGATG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (27 bp):
CCACAAAGGCGATACATAAAGAGTACA
Found at i:6626914 original size:74 final size:68
Alignment explanation
Indices: 6626825--6627047 Score: 206
Period size: 74 Copynumber: 3.2 Consensus size: 68
6626815 CAAAAAAAAG
* *
6626825 AATTTATTCATTTTTTGATAAAATATAAATAAGTCTATTATTCATGTAAAAATACAATACAGTAC
1 AATTTATTCA-TTTTTGATAAATTATAAATAAGTCTATTATTAATGTAAAAATACAATACA-TAC
6626890 AATACAAAC
64 AAT----AC
* * ** *
6626899 AATTTATTCACTTTTTTATAAATTGTAAATAAGTAAATTATTAATGTGAAAATACAAT--A-A-A
1 AATTTATTCA-TTTTTGATAAATTATAAATAAGTCTATTATTAATGTAAAAATACAATACATACA
6626960 ATAC
65 ATAC
* * *
6626964 AATTTATTCATTTTTGGTAAATTATAAATAAG-CTGATTATTAATGTCAAATTACAATACAATAC
1 AATTTATTCATTTTTGATAAATTATAAATAAGTCT-ATTATTAATGTAAAAATACAATAC-ATAC
*
6627028 AA-AG
64 AATAC
*
6627032 AATTTTTTTCATTTTT
1 AA-TTTATTCATTTTT
6627048 TTTATAAACA
Statistics
Matches: 125, Mismatches: 17, Indels: 19
0.78 0.11 0.12
Matches are distributed among these distances:
64 39 0.31
65 12 0.10
67 1 0.01
68 4 0.03
69 17 0.14
70 1 0.01
72 1 0.01
74 50 0.40
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (68 bp):
AATTTATTCATTTTTGATAAATTATAAATAAGTCTATTATTAATGTAAAAATACAATACATACAA
TAC
Found at i:6626985 original size:64 final size:65
Alignment explanation
Indices: 6626887--6627029 Score: 193
Period size: 64 Copynumber: 2.2 Consensus size: 65
6626877 TACAATACAG
* * *
6626887 TACAATACAA-ACAATTTATTCACTTTTTTATAAATTGTAAATAAG-TAAATTATTAATGTGAAA
1 TACAATACAATACAATTTATTCACTTTTTGATAAATTATAAATAAGCT-AATTATTAATGTCAAA
6626950 A
65 A
* * * *
6626951 TACAATAAAATACAATTTATTCA-TTTTTGGTAAATTATAAATAAGCTGATTATTAATGTCAAAT
1 TACAATACAATACAATTTATTCACTTTTTGATAAATTATAAATAAGCTAATTATTAATGTCAAAA
6627015 TACAATACAATACAA
1 TACAATACAATACAA
6627030 AGAATTTTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
64 56 0.81
65 13 0.19
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (65 bp):
TACAATACAATACAATTTATTCACTTTTTGATAAATTATAAATAAGCTAATTATTAATGTCAAAA
Found at i:6630221 original size:16 final size:15
Alignment explanation
Indices: 6630200--6630243 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6630190 TAATCACATT
6630200 AATATTAAATTAATAA
1 AATATTAAATTAAT-A
** *
6630216 AATATTATCTTGATA
1 AATATTAAATTAATA
6630231 AATATTAAATTAA
1 AATATTAAATTAA
6630244 ATTTCATATT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (15 bp):
AATATTAAATTAATA
Found at i:6632913 original size:42 final size:41
Alignment explanation
Indices: 6632853--6632976 Score: 117
Period size: 42 Copynumber: 2.9 Consensus size: 41
6632843 CATGTTATCA
*
6632853 CATAT-CGATGCCACTGTCCCACACAGGGTCTTACACGAAAT
1 CATATACGATGCCA-TGTCCCAAACAGGGTCTTACACGAAAT
* * *
6632894 CATATACGATGCCGATGTCCCAGACATGGTCTTACACGTACAT
1 CATATACGATGCC-ATGTCCCAAACAGGGTCTTACACG-AAAT
* * *
6632937 CACAAATCGATGCCAATATCCCAAAC-GTGGTCTTACACGA
1 CATATA-CGATGCC-ATGTCCCAAACAG-GGTCTTACACGA
6632977 TAACACATCT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
41 5 0.07
42 28 0.41
43 9 0.13
44 27 0.39
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (41 bp):
CATATACGATGCCATGTCCCAAACAGGGTCTTACACGAAAT
Found at i:6632959 original size:44 final size:44
Alignment explanation
Indices: 6632823--6632975 Score: 150
Period size: 43 Copynumber: 3.5 Consensus size: 44
6632813 ATACAACGCC
* * * *
6632823 ATATCCTAGATATGGTCTTACATGT-TATCACATATCGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAAATCACATATCGATGCCA
* * * * * *
6632866 CTGTCCCACACAGGGTCTTACACG-AAATCATATA-CGATGCCG
1 ATATCCCAGACATGGTCTTACACGTAAATCACATATCGATGCCA
* * *
6632908 ATGTCCCAGACATGGTCTTACACGTACATCACAAATCGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAAATCACATATCGATGCCA
* *
6632952 ATATCCCAAACGTGGTCTTACACG
1 ATATCCCAGACATGGTCTTACACG
6632976 ATAACACATC
Statistics
Matches: 87, Mismatches: 20, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
42 28 0.32
43 31 0.36
44 28 0.32
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (44 bp):
ATATCCCAGACATGGTCTTACACGTAAATCACATATCGATGCCA
Found at i:6637195 original size:16 final size:17
Alignment explanation
Indices: 6637168--6637202 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6637158 TAGCATCGAG
*
6637168 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
6637185 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
6637201 TT
1 TT
6637203 TAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:6638043 original size:38 final size:38
Alignment explanation
Indices: 6637976--6638048 Score: 87
Period size: 38 Copynumber: 1.9 Consensus size: 38
6637966 ACTTAATTAC
* *
6637976 TTTAATATTAAATTAATAAAATACTATTAAGATAAGAA
1 TTTAATATTAAATTAATAAAATACAATTAAAATAAGAA
*
6638014 TTTAAT-TTAATTTAATATTAAA-ACAATTAAAATAA
1 TTTAATATTAAATTAATA--AAATACAATTAAAATAA
6638049 TATTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
37 10 0.33
38 17 0.57
39 3 0.10
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (38 bp):
TTTAATATTAAATTAATAAAATACAATTAAAATAAGAA
Found at i:6644225 original size:60 final size:59
Alignment explanation
Indices: 6644105--6644225 Score: 170
Period size: 59 Copynumber: 2.0 Consensus size: 59
6644095 CAAAAAAGTT
** * *
6644105 AAGTTTAGGCACCTAATTGGACAAAAAAAAGATTAGGTACCAAATTGAACATCGAGGCC
1 AAGTTTAGAAACCTAATTGGACAAAAAAAAGATTAGATACCAAATTGAACATCGAAGCC
* * *
6644164 AAGTTTAGAAACCTAATTGGACAAAAAAAAGCTTTAGATACCAATTTGAACCTCGAAGCC
1 AAGTTTAGAAACCTAATTGGACAAAAAAAAG-ATTAGATACCAAATTGAACATCGAAGCC
6644224 AA
1 AA
6644226 ATTCAAGTAC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 29 0.54
60 25 0.46
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.21
Consensus pattern (59 bp):
AAGTTTAGAAACCTAATTGGACAAAAAAAAGATTAGATACCAAATTGAACATCGAAGCC
Found at i:6646804 original size:11 final size:11
Alignment explanation
Indices: 6646750--6646805 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
6646740 CCTACTATCG
6646750 TTTTGTTGTT-
1 TTTTGTTGTTA
* *
6646760 GTTTGTTGCTA
1 TTTTGTTGTTA
*
6646771 TTTTGTTATTA
1 TTTTGTTGTTA
* * *
6646782 TATTGCTATTA
1 TTTTGTTGTTA
6646793 TTTTGTTGTTA
1 TTTTGTTGTTA
6646804 TT
1 TT
6646806 GTTTGGATAT
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
10 8 0.23
11 27 0.77
ACGTcount: A:0.12, C:0.04, G:0.16, T:0.68
Consensus pattern (11 bp):
TTTTGTTGTTA
Found at i:6650789 original size:22 final size:22
Alignment explanation
Indices: 6650761--6650822 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
6650751 GATAAATAAT
*
6650761 TTGTAATGTTTTGTGTAATTTG
1 TTGTAATATTTTGTGTAATTTG
* *
6650783 TTGTAATAATCTGTGTAA-TTG
1 TTGTAATATTTTGTGTAATTTG
6650804 --GATAATATTTTGTGTAATT
1 TTG-TAATATTTTGTGTAATT
6650823 ACACACAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 1 0.03
20 13 0.39
21 4 0.12
22 15 0.45
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.53
Consensus pattern (22 bp):
TTGTAATATTTTGTGTAATTTG
Found at i:6655841 original size:24 final size:24
Alignment explanation
Indices: 6655791--6655841 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
6655781 TAATATAAAT
6655791 TATTTGTAAAATTAATGATACAAGA
1 TATTTGTAAAATTAA-GATACAAGA
6655816 TATTT-TAAAATTTAA-ATACAATGA
1 TATTTGTAAAA-TTAAGATACAA-GA
6655840 TA
1 TA
6655842 AATGATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.25
24 9 0.38
25 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (24 bp):
TATTTGTAAAATTAAGATACAAGA
Found at i:6655849 original size:31 final size:31
Alignment explanation
Indices: 6655804--6655872 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
6655794 TTGTAAAATT
*
6655804 AATGATACAAGATATTTTAA-AATTTAAATAC
1 AATGATACAAGATATTTAAATAATTT-AATAC
*
6655835 AATGATA-AATGATATTTAAATAATTTAATAT
1 AATGATACAA-GATATTTAAATAATTTAATAC
6655866 AATGATA
1 AATGATA
6655873 TTTGTGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 2 0.06
31 27 0.79
32 5 0.15
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (31 bp):
AATGATACAAGATATTTAAATAATTTAATAC
Found at i:6657242 original size:17 final size:19
Alignment explanation
Indices: 6657220--6657257 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6657210 TTAGTATTAC
6657220 AATTTT-ATTTTAA-TAAT
1 AATTTTAATTTTAAGTAAT
6657237 AATTTTAAATTTTAAGTAAT
1 AATTTT-AATTTTAAGTAAT
6657257 A
1 A
6657258 TACTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
AATTTTAATTTTAAGTAAT
Found at i:6664082 original size:25 final size:25
Alignment explanation
Indices: 6664040--6664091 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
6664030 TACGTACAAT
6664040 TAATTTACTTTTACCTTTTCT-AGGG
1 TAATTTACTTTTACCTTTT-TGAGGG
6664065 TAATTTACTTTTTA-CTTTTTGAGGG
1 TAATTTAC-TTTTACCTTTTTGAGGG
6664090 TA
1 TA
6664092 TTTTCTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 1 0.04
25 19 0.76
26 5 0.20
ACGTcount: A:0.21, C:0.12, G:0.13, T:0.54
Consensus pattern (25 bp):
TAATTTACTTTTACCTTTTTGAGGG
Found at i:6669171 original size:20 final size:20
Alignment explanation
Indices: 6669146--6669240 Score: 106
Period size: 20 Copynumber: 4.8 Consensus size: 20
6669136 GCTTTTACCA
6669146 AAATATTTTGGTAAATCCTT
1 AAATATTTTGGTAAATCCTT
6669166 AAATATTTTGGTAAAGT-CTT
1 AAATATTTTGGTAAA-TCCTT
*
6669186 AGAA-ATTTTGGTGAATCCTT
1 A-AATATTTTGGTAAATCCTT
*
6669206 AGAA-ATATTGGTAAATCCTT
1 A-AATATTTTGGTAAATCCTT
**
6669226 GGATATTTTGGTAAA
1 AAATATTTTGGTAAA
6669241 AGCTTTTCCT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
19 2 0.03
20 60 0.92
21 3 0.05
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (20 bp):
AAATATTTTGGTAAATCCTT
Found at i:6671120 original size:13 final size:13
Alignment explanation
Indices: 6671104--6671156 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
6671094 TTTAAACCAA
6671104 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
6671117 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
6671130 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
6671143 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
6671156 A
1 A
6671157 ATGAAAAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:6676930 original size:3 final size:3
Alignment explanation
Indices: 6676924--6676960 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
6676914 AAGATGGAGG
6676924 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
6676961 AACCTGTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:6687180 original size:17 final size:17
Alignment explanation
Indices: 6687155--6687187 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6687145 ATCCCAGTCC
*
6687155 AAAATCCAAAGTCCAAA
1 AAAAACCAAAGTCCAAA
6687172 AAAAACCAAAGTCCAA
1 AAAAACCAAAGTCCAA
6687188 GTCCAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.24, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAAACCAAAGTCCAAA
Found at i:6687203 original size:25 final size:25
Alignment explanation
Indices: 6687153--6687219 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
6687143 AAATCCCAGT
6687153 CCAAAATCCAAAGTCC--AAAAAAAA
1 CCAAAATCC-AAGTCCAAAAAAAAAA
*
6687177 CCAAAGTCCAAGTCCAAAAAAAAAA
1 CCAAAATCCAAGTCCAAAAAAAAAA
* *
6687202 CCAAACTCCAAATCCAAA
1 CCAAAATCCAAGTCCAAA
6687220 GTAATAAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.16
24 8 0.21
25 24 0.63
ACGTcount: A:0.58, C:0.28, G:0.04, T:0.09
Consensus pattern (25 bp):
CCAAAATCCAAGTCCAAAAAAAAAA
Found at i:6687425 original size:20 final size:20
Alignment explanation
Indices: 6687388--6687425 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6687378 TAATAACAAT
*
6687388 AACATAATTTAACTCATAAC
1 AACATAATTTAACGCATAAC
6687408 AACATTAATTTAA-GCATA
1 AACA-TAATTTAACGCATA
6687426 TCATAACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.32
Consensus pattern (20 bp):
AACATAATTTAACGCATAAC
Found at i:6689697 original size:50 final size:50
Alignment explanation
Indices: 6689592--6689831 Score: 241
Period size: 50 Copynumber: 4.7 Consensus size: 50
6689582 TAAAGAGATT
*
6689592 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTC
* * *
6689648 TCATGTAAGACCATGCCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
** * * **
6689698 CCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * * * * **
6689748 CCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAGAAATATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTC
*
6689797 CCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
6689832 TGTTATTATC
Statistics
Matches: 157, Mismatches: 26, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 39 0.25
50 81 0.52
53 3 0.02
55 1 0.01
56 32 0.20
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
Found at i:6696029 original size:180 final size:177
Alignment explanation
Indices: 6695722--6696064 Score: 553
Period size: 180 Copynumber: 1.9 Consensus size: 177
6695712 TTTTTTTCTG
* *
6695722 GTGGATTTGATCTTTGGGACCTGTTCTTTTTTTCTATAAAACCTTTGGTTTGATAAACTTGTTAC
1 GTGGACTTGATCTTTGGGACCTGTTCTTTTTTTCTATAAAACCTATGGTTTGATAAACTTGTTAC
*
6695787 ATTAGATTTGCATTTGTATTTCCCTGTGAGTTTATGCTAAACATCTCTAGGTTCTACTTACATTT
66 ATTAGATTTGCATTTGTATTTCCCTGTGAGTTTATGCTAAACATCTCAAGGTTCTACTTACATTT
*
6695852 GGCTT-TGCAAAATGTTTTAGCAAAACAAGATTGTGTGGTGTCTGTGT
131 GACTTAT-CAAAATGTTTTAGCAAAACAAGATTGTGTGGTGTCTGTGT
*
6695899 GTGGACTTGATCTTTGGGACCTGTTCTTTTTTTTTTCTATAAAACCTATGGTTTGATCAACTTGT
1 GTGGACTTGATCTTTGGGACCTGTTC---TTTTTTTCTATAAAACCTATGGTTTGATAAACTTGT
** * * *
6695964 TTGATTAGATTTGCATTTGTATTTCCCTGTGAGTTTGTGCTAAACATTTCAAGGTTCTGCTTACA
63 TACATTAGATTTGCATTTGTATTTCCCTGTGAGTTTATGCTAAACATCTCAAGGTTCTACTTACA
6696029 TTTGACTTATCAAAATGTTTTAGCAAAACAAGATTG
128 TTTGACTTATCAAAATGTTTTAGCAAAACAAGATTG
6696065 CGTGTGTGCG
Statistics
Matches: 152, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
177 25 0.16
180 126 0.83
181 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.44
Consensus pattern (177 bp):
GTGGACTTGATCTTTGGGACCTGTTCTTTTTTTCTATAAAACCTATGGTTTGATAAACTTGTTAC
ATTAGATTTGCATTTGTATTTCCCTGTGAGTTTATGCTAAACATCTCAAGGTTCTACTTACATTT
GACTTATCAAAATGTTTTAGCAAAACAAGATTGTGTGGTGTCTGTGT
Found at i:6698650 original size:6 final size:6
Alignment explanation
Indices: 6698641--6698687 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
6698631 GATGATGGTG
*
6698641 ATGCTA ATGCTA ATGCTGA A-GCTGA A-GCTG ATGCTA ATGCTA ATGCT
1 ATGCTA ATGCTA ATGCT-A ATGCT-A ATGCTA ATGCTA ATGCTA ATGCT
6698688 GAAGATAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 1 0.03
6 34 0.92
7 2 0.05
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (6 bp):
ATGCTA
Found at i:6704677 original size:17 final size:17
Alignment explanation
Indices: 6704646--6704679 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6704636 CGGAGCCAGC
*
6704646 CTCCTCCACGTGCGCCA
1 CTCCTCCACGAGCGCCA
*
6704663 CTCCTCCATGAGCGCCA
1 CTCCTCCACGAGCGCCA
6704680 TGCCTTGCGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.50, G:0.18, T:0.18
Consensus pattern (17 bp):
CTCCTCCACGAGCGCCA
Found at i:6704981 original size:6 final size:6
Alignment explanation
Indices: 6704970--6704995 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6704960 TTAAAATAAC
6704970 AAAGAA AAAGAA AAAGAA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AA
6704996 CTTACCTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:6709571 original size:21 final size:21
Alignment explanation
Indices: 6709541--6709586 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
6709531 TAAGCTACAG
* *
6709541 AACTCTGAATTGAGATCCGTA
1 AACTCCGAATTGAGATCCGAA
6709562 AACTCCGAATTGAGATCCGAA
1 AACTCCGAATTGAGATCCGAA
6709583 AACT
1 AACT
6709587 TTATATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (21 bp):
AACTCCGAATTGAGATCCGAA
Found at i:6712619 original size:23 final size:25
Alignment explanation
Indices: 6712574--6712637 Score: 78
Period size: 23 Copynumber: 2.6 Consensus size: 25
6712564 TCTTTGAAAG
*
6712574 GCCTTAGTGGCTAGTATTATGTGAT
1 GCCTTAGTGGCTAGTATTATGTGAC
* *
6712599 GCCTTTGTGGC-A-TATTTTGTGAC
1 GCCTTAGTGGCTAGTATTATGTGAC
*
6712622 GCCTAAGTGGCTAGTA
1 GCCTTAGTGGCTAGTA
6712638 ATTGATAACC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 18 0.56
24 2 0.06
25 12 0.38
ACGTcount: A:0.19, C:0.16, G:0.28, T:0.38
Consensus pattern (25 bp):
GCCTTAGTGGCTAGTATTATGTGAC
Found at i:6723094 original size:25 final size:25
Alignment explanation
Indices: 6723064--6723171 Score: 98
Period size: 25 Copynumber: 4.5 Consensus size: 25
6723054 GCACTTTCTC
6723064 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
* * * * **
6723089 GAGCCATGTAACATGAAACTTATCC
1 GAGCCATATAACAGGAAGCTCATGT
**
6723114 GAG-C-TATAACAGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATGT
* *
6723137 GAGCCATAT-TCAGGTAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
6723161 GAGCCA-ATAAC
1 GAGCCATATAAC
6723172 GGGTAGCTTC
Statistics
Matches: 63, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
23 18 0.29
24 20 0.32
25 25 0.40
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATGT
Found at i:6723379 original size:64 final size:64
Alignment explanation
Indices: 6723264--6723390 Score: 164
Period size: 64 Copynumber: 2.0 Consensus size: 64
6723254 ACGAAGATCC
* *** * * *
6723264 ATATATCAGGACGCTTTTAAAGAGCTACGGTATATCCGTAATACATGCAGGATCACTACCGATT
1 ATATAACAGGACGCTCACAAAGAGCTACGGTATATCCGCAACACATGCAGGATCAATACCGATT
* * *
6723328 ATATAACAGGACGCTCACAAAGAGCTCCGGTATGTCCGCAACACATTCAGGATCAATACCGAT
1 ATATAACAGGACGCTCACAAAGAGCTACGGTATATCCGCAACACATGCAGGATCAATACCGAT
6723391 CGAGATGGTC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (64 bp):
ATATAACAGGACGCTCACAAAGAGCTACGGTATATCCGCAACACATGCAGGATCAATACCGATT
Found at i:6725837 original size:170 final size:170
Alignment explanation
Indices: 6725577--6725896 Score: 552
Period size: 170 Copynumber: 1.9 Consensus size: 170
6725567 CGTTAATATA
* * *
6725577 CATATAGGGGACACCTTATGTATATGACGCTTTGTACTCCATGCCATGAAAAGTCTATTTTTAAC
1 CATATAGGGGACACCTTAGGAATATGACGCTTTGTACTCCATGCCATAAAAAGTCTATTTTTAAC
* *
6725642 AAAATTTTAAGTTGTAACGTCATATGCCGTTTTTGAAAATCTGATGTAATTATTAGGCATCCTCT
66 AAAATTTTAAGTTGTAACGTCATATGCCGTTCTTGAAAATCTGATGTAATTATTAGACATCCTCT
6725707 TTCATTAATATTTTGTTCTAGTTCGATTTGCAATATTATG
131 TTCATTAATATTTTGTTCTAGTTCGATTTGCAATATTATG
*
6725747 CATATAGGGGACACCTTAGGAATATGGCGCTTAT-TACTCCATGCCATAAAAAGTCTATTTTTAA
1 CATATAGGGGACACCTTAGGAATATGACGCTT-TGTACTCCATGCCATAAAAAGTCTATTTTTAA
* *
6725811 CAAAGTTTTAAGTTGTAACGTCATATGCCGTTCTTGAAAATCTGATGTAATTATTAGACATTCTC
65 CAAAATTTTAAGTTGTAACGTCATATGCCGTTCTTGAAAATCTGATGTAATTATTAGACATCCTC
6725876 TTTCATTAATATTTTGTTCTA
130 TTTCATTAATATTTTGTTCTA
6725897 AGAATAGTAA
Statistics
Matches: 141, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
170 140 0.99
171 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (170 bp):
CATATAGGGGACACCTTAGGAATATGACGCTTTGTACTCCATGCCATAAAAAGTCTATTTTTAAC
AAAATTTTAAGTTGTAACGTCATATGCCGTTCTTGAAAATCTGATGTAATTATTAGACATCCTCT
TTCATTAATATTTTGTTCTAGTTCGATTTGCAATATTATG
Found at i:6726183 original size:130 final size:130
Alignment explanation
Indices: 6725950--6726207 Score: 426
Period size: 130 Copynumber: 2.0 Consensus size: 130
6725940 TTACGCCTGT
* * * * * *
6725950 AGTAAATTTTTTGTTGAATGTTTAAGTTTTGTAATAGTCGATATTCAGATTCGGTAATTTGGGTC
1 AGTAAAATTTTTGTTAAATGTTTAAGTTTTCTAACAGTCGATATTCAGATCCGGTAATTCGGGTC
*
6726015 GGGTATAGGATGTTACAATATAAGTTTGTATAATTAAAGCTATAGACTATTTGCACCATGAACCC
66 GGGTATAGGATGTTACAATATAAGTTTGCATAATTAAAGCTATAGACTATTTGCACCATGAACCC
* *
6726080 AGTAAAATTTTTGTTAAATGTTTAAGTTTTCTAACAGTTGATATTCGGATCCGGTAATTCGGGTC
1 AGTAAAATTTTTGTTAAATGTTTAAGTTTTCTAACAGTCGATATTCAGATCCGGTAATTCGGGTC
*
6726145 GGGTATAGGATGTTACAGTATAAGTTTGCATAATTAAAGCTATAGACTATTTGCACCATGAAC
66 GGGTATAGGATGTTACAATATAAGTTTGCATAATTAAAGCTATAGACTATTTGCACCATGAAC
6726208 ACAAGTATTA
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 118 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (130 bp):
AGTAAAATTTTTGTTAAATGTTTAAGTTTTCTAACAGTCGATATTCAGATCCGGTAATTCGGGTC
GGGTATAGGATGTTACAATATAAGTTTGCATAATTAAAGCTATAGACTATTTGCACCATGAACCC
Found at i:6736682 original size:2 final size:2
Alignment explanation
Indices: 6736675--6736699 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6736665 CGCCATTTGC
6736675 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
6736700 TCTCTCTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:6736826 original size:11 final size:11
Alignment explanation
Indices: 6736810--6736853 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
6736800 AATATCAATG
6736810 AGAAAAGAAGA
1 AGAAAAGAAGA
*
6736821 AGAAAACAAGAA
1 AGAAAAGAAG-A
*
6736833 ACAAAAGAAGA
1 AGAAAAGAAGA
*
6736844 AGGAAAGAAG
1 AGAAAAGAAG
6736854 CTTAAAAGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (11 bp):
AGAAAAGAAGA
Found at i:6738718 original size:40 final size:40
Alignment explanation
Indices: 6738674--6738752 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
6738664 TACGTGGACA
**
6738674 CAAAGCGCGCTTACGAGGACGCGTTTTGCTGCCACGTAGG
1 CAAAGCGCGCCCACGAGGACGCGTTTTGCTGCCACGTAGG
* * * *
6738714 CAAAGCGCGCCCCCGGGGCCGCGTTTTGTTGCCACGTAG
1 CAAAGCGCGCCCACGAGGACGCGTTTTGCTGCCACGTAG
6738753 CGCGCCCCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.16, C:0.32, G:0.33, T:0.19
Consensus pattern (40 bp):
CAAAGCGCGCCCACGAGGACGCGTTTTGCTGCCACGTAGG
Found at i:6738818 original size:15 final size:15
Alignment explanation
Indices: 6738800--6738842 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
6738790 GTTAGGTTTT
6738800 GGGTTTTTAGGGTTA
1 GGGTTTTTAGGGTTA
* *
6738815 GGG-TTTAAGGTTTA
1 GGGTTTTTAGGGTTA
*
6738829 AGGTTTTTAGGGTT
1 GGGTTTTTAGGGTT
6738843 TTAGAGAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
GGGTTTTTAGGGTTA
Found at i:6741860 original size:59 final size:59
Alignment explanation
Indices: 6741768--6741892 Score: 250
Period size: 59 Copynumber: 2.1 Consensus size: 59
6741758 CATTGTAAAC
6741768 AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
1 AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
6741827 AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
1 AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
6741886 AAATTAT
1 AAATTAT
6741893 TAATTGTTAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 66 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.41
Consensus pattern (59 bp):
AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
Found at i:6742006 original size:22 final size:22
Alignment explanation
Indices: 6741960--6742097 Score: 169
Period size: 22 Copynumber: 6.4 Consensus size: 22
6741950 ACGTTTAGGG
*
6741960 TTAGGGTTTTTAAGTTAAGCG-
1 TTAGGGTTTTTAAGTTAAGAGT
*
6741981 TTAGAGTTTTTAAGTTAAGAGT
1 TTAGGGTTTTTAAGTTAAGAGT
**
6742003 TTAGGGTTTTTAAGTT--GTTT
1 TTAGGGTTTTTAAGTTAAGAGT
6742023 GTTAGGGTTTTTAAGTTAAG-GAT
1 -TTAGGGTTTTTAAGTTAAGAG-T
*
6742046 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGAGT
6742068 TTAGGGTTTTTAAGTTAA-AGT
1 TTAGGGTTTTTAAGTTAAGAGT
6742089 GTTAGGGTT
1 -TTAGGGTT
6742098 AGGGTTAGGG
Statistics
Matches: 103, Mismatches: 7, Indels: 13
0.84 0.06 0.11
Matches are distributed among these distances:
20 2 0.02
21 37 0.36
22 61 0.59
23 3 0.03
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAAGAGT
Found at i:6742027 original size:43 final size:43
Alignment explanation
Indices: 6741960--6742097 Score: 172
Period size: 43 Copynumber: 3.2 Consensus size: 43
6741950 ACGTTTAGGG
* * *
6741960 TTAGGGTTTTTAAGTTAAGCGTTAGAGTTTTTAAGTTAAGAGT
1 TTAGGGTTTTTAAGTTGAGTGTTAGGGTTTTTAAGTTAAGAGT
**
6742003 TTAGGGTTTTTAAGTTGTTTGTTAGGGTTTTTAAGTTAAG-GAT
1 TTAGGGTTTTTAAGTTGAGTGTTAGGGTTTTTAAGTTAAGAG-T
* *
6742046 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAA-AGT
1 TTAGGGTTTTTAAGTTGAGTG-TTAGGGTTTTTAAGTTAAGAGT
6742089 GTTAGGGTT
1 -TTAGGGTT
6742098 AGGGTTAGGG
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.01
43 54 0.66
44 27 0.33
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (43 bp):
TTAGGGTTTTTAAGTTGAGTGTTAGGGTTTTTAAGTTAAGAGT
Found at i:6742217 original size:101 final size:102
Alignment explanation
Indices: 6742098--6742298 Score: 343
Period size: 101 Copynumber: 2.0 Consensus size: 102
6742088 TGTTAGGGTT
*
6742098 AGGGTTAGGGTTTTTGTTAGGGTTTGTCAATTAATATCA-AAATTTAATTATAAATTTTAAATTT
1 AGGGTTAGGGTTTTTGTTAGGGTTTGTCAATTAA-ATCATAAATTTAATTATAAATTATAAATTT
*
6742162 TTAAATTTTTAAAAAATTAATTTAGGG-TTTTAAGTTA
65 ATAAATTTTTAAAAAATTAATTTAGGGTTTTTAAGTTA
*
6742199 AGGGTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTA
1 AGGGTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATCATAAATTTAATTATAAATTATAAATTTA
*
6742264 TAAATTTTTAATAAATTAATTTAGGGTTTTTAAGT
66 TAAATTTTTAAAAAATTAATTTAGGGTTTTTAAGT
6742299 AATACATCAA
Statistics
Matches: 94, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
100 3 0.03
101 83 0.88
102 8 0.09
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (102 bp):
AGGGTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATCATAAATTTAATTATAAATTATAAATTTA
TAAATTTTTAAAAAATTAATTTAGGGTTTTTAAGTTA
Found at i:6742242 original size:12 final size:12
Alignment explanation
Indices: 6742227--6742269 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
6742217 AGGGTTTGTC
6742227 AATTAAATTATA
1 AATTAAATTATA
*
6742239 AATTTAATTATA
1 AATTAAATTATA
6742251 AATTATAAATTTATA
1 AA-T-TAAA-TTATA
6742266 AATT
1 AATT
6742270 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 4 0.15
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:6742283 original size:8 final size:7
Alignment explanation
Indices: 6742230--6742269 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
6742220 GTTTGTCAAT
6742230 TAAATTA
1 TAAATTA
6742237 TAAATT-
1 TAAATTA
6742243 T-AATTA
1 TAAATTA
6742249 TAAATTA
1 TAAATTA
6742256 TAAATTTA
1 TAAA-TTA
6742264 TAAATT
1 TAAATT
6742270 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:6744645 original size:52 final size:52
Alignment explanation
Indices: 6744587--6744692 Score: 135
Period size: 52 Copynumber: 2.0 Consensus size: 52
6744577 TAATTTTTTT
6744587 AAAATAATA-AAAAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCA
1 AAAATAA-ACAAAAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCA
** * * *
6744639 AAAATAAACTTAAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCA
1 AAAATAAACAAAAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCA
6744691 AA
1 AA
6744693 TTGAGAACAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 1 0.02
52 45 0.96
53 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.22, T:0.23
Consensus pattern (52 bp):
AAAATAAACAAAAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCA
Found at i:6744695 original size:11 final size:11
Alignment explanation
Indices: 6744679--6744743 Score: 87
Period size: 11 Copynumber: 5.8 Consensus size: 11
6744669 ATTTGGAAGG
*
6744679 AAATTGAGAGC
1 AAATTGAGAAC
6744690 AAATTGAGAAC
1 AAATTGAGAAC
6744701 AAATTGAGAAC
1 AAATTGAGAAC
6744712 AAATTGAGAGA-
1 AAATTGAGA-AC
*
6744723 AAATTGAGAAA
1 AAATTGAGAAC
6744734 ATAATTGAGA
1 A-AATTGAGA
6744744 GGATTGGTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
10 1 0.02
11 40 0.80
12 9 0.18
ACGTcount: A:0.54, C:0.05, G:0.22, T:0.20
Consensus pattern (11 bp):
AAATTGAGAAC
Found at i:6744697 original size:33 final size:32
Alignment explanation
Indices: 6744660--6744735 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
6744650 AAATATGGAT
* *
6744660 TTGAGAGAAATTTG-GAAGGAAATTGAGAGCAAA
1 TTGAGA-AAATTTGAGAA-CAAATTGAGAGAAAA
*
6744693 TTGAGAACAAATTGAGAACAAATTGAGAGAAAA
1 TTGAGAA-AATTTGAGAACAAATTGAGAGAAAA
6744726 TTGAGAAAAT
1 TTGAGAAAAT
6744736 AATTGAGAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 3 0.08
33 31 0.84
34 3 0.08
ACGTcount: A:0.50, C:0.04, G:0.25, T:0.21
Consensus pattern (32 bp):
TTGAGAAAATTTGAGAACAAATTGAGAGAAAA
Found at i:6747887 original size:15 final size:15
Alignment explanation
Indices: 6747862--6747907 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
6747852 GCTTGGACGA
*
6747862 AAATTAACCAAACTT
1 AAATTAGCCAAACTT
*
6747877 GAATTAGCCAAACTT
1 AAATTAGCCAAACTT
*
6747892 AAATTGAGCAAAACTT
1 AAATT-AGCCAAACTT
6747908 CATTCATTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (15 bp):
AAATTAGCCAAACTT
Found at i:6750787 original size:3 final size:3
Alignment explanation
Indices: 6750779--6750851 Score: 57
Period size: 3 Copynumber: 26.0 Consensus size: 3
6750769 CCTGGGCAGT
* * * *
6750779 AGA AGA AGA ACA A-A AAA AGA AGA AG- AGA AGA A-A TGG AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* *
6750824 AGA A-A AGA AGA AG- AGG AGA AGA ATA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
6750852 GAAAATGGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
2 9 0.16
3 47 0.84
ACGTcount: A:0.66, C:0.01, G:0.30, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:6750823 original size:25 final size:25
Alignment explanation
Indices: 6750795--6750851 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
6750785 AGAACAAAAA
*
6750795 AAGAAGAAGAGAAGAA-ATGGAGAAG
1 AAGAAGAAAAGAAGAAGA-GGAGAAG
6750820 AAGAAGAAAAGAAGAAGAGGAGAAG
1 AAGAAGAAAAGAAGAAGAGGAGAAG
*
6750845 AATAAGA
1 AAGAAGA
6750852 GAAAATGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.04
Consensus pattern (25 bp):
AAGAAGAAAAGAAGAAGAGGAGAAG
Found at i:6750854 original size:11 final size:11
Alignment explanation
Indices: 6750795--6750846 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
6750785 AGAACAAAAA
6750795 AAGAAGAAGAG
1 AAGAAGAAGAG
*
6750806 AAGAA-ATGGAG
1 AAGAAGA-AGAG
*
6750817 AAGAAGAAGAA
1 AAGAAGAAGAG
6750828 AAGAAGAAGAG
1 AAGAAGAAGAG
*
6750839 GAGAAGAA
1 AAGAAGAA
6750847 TAAGAGAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 1 0.03
11 32 0.94
12 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (11 bp):
AAGAAGAAGAG
Found at i:6752187 original size:20 final size:20
Alignment explanation
Indices: 6752140--6752196 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
6752130 CTAAAATCCA
* *
6752140 AAACAACAAACCCTAAACTT
1 AAACACCAAACACTAAACTT
6752160 AAACACCAAACACTAAACTCT
1 AAACACCAAACACTAAACT-T
* *
6752181 TAA-ACCAAAAACTAAA
1 AAACACCAAACACTAAA
6752197 ACCCTAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 29 0.91
21 3 0.09
ACGTcount: A:0.58, C:0.28, G:0.00, T:0.14
Consensus pattern (20 bp):
AAACACCAAACACTAAACTT
Found at i:6752311 original size:27 final size:28
Alignment explanation
Indices: 6752281--6752333 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6752271 CATGAACACT
* *
6752281 AAATATATAAT-ATCAACACTAAACCAA
1 AAATATAGAATCATAAACACTAAACCAA
*
6752308 AAATATAGAATCATAAACCCTAAACC
1 AAATATAGAATCATAAACACTAAACC
6752334 CTAAAACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.57, C:0.21, G:0.02, T:0.21
Consensus pattern (28 bp):
AAATATAGAATCATAAACACTAAACCAA
Found at i:6752403 original size:14 final size:14
Alignment explanation
Indices: 6752384--6752410 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6752374 TTGAATCATA
6752384 AACCTTAAACACTT
1 AACCTTAAACACTT
6752398 AACCTTAAACACT
1 AACCTTAAACACT
6752411 AAATCTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (14 bp):
AACCTTAAACACTT
Found at i:6752459 original size:20 final size:20
Alignment explanation
Indices: 6752403--6752476 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
6752393 CACTTAACCT
* * *
6752403 TAAACACTAAATCTAAAATAT
1 TAAACCCTAAA-CTTAAATAA
6752424 TAAACCCTAAAAACTTAAATAA
1 TAAACCCT--AAACTTAAATAA
* *
6752446 TAAACCCTAAACTTAAACAC
1 TAAACCCTAAACTTAAATAA
*
6752466 TAAACCATAAA
1 TAAACCCTAAA
6752477 TTCCAAAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 20 0.44
21 7 0.16
22 15 0.33
23 3 0.07
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAACCCTAAACTTAAATAA
Found at i:6752611 original size:21 final size:20
Alignment explanation
Indices: 6752582--6752633 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
6752572 CTAAGCTCAA
6752582 AAACA-TAAACTAAAAACAC
1 AAACACTAAACTAAAAACAC
* *
6752601 TAAACACTAAATCTAGAATCAC
1 -AAACACTAAA-CTAAAAACAC
*
6752623 AAACCCTAAAC
1 AAACACTAAAC
6752634 CCTAAACTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.22
21 13 0.48
22 8 0.30
ACGTcount: A:0.58, C:0.25, G:0.02, T:0.15
Consensus pattern (20 bp):
AAACACTAAACTAAAAACAC
Found at i:6752747 original size:21 final size:21
Alignment explanation
Indices: 6752718--6752859 Score: 61
Period size: 21 Copynumber: 6.9 Consensus size: 21
6752708 AATTCAATCT
*
6752718 TAAACCTTAAACCCTAAACTC
1 TAAATCTTAAACCCTAAACTC
*
6752739 TAAATCTTAAA-TCTAGAA-TC
1 TAAATCTTAAACCCTA-AACTC
*
6752759 ----TC--AAACCCAAAACTC
1 TAAATCTTAAACCCTAAACTC
* * *
6752774 AAAACCTTAAAACCTAAACTC
1 TAAATCTTAAACCCTAAACTC
*
6752795 AAATAATATCATAAACCCTAAA-TCC
1 ---TAA-ATCTTAAACCCTAAACT-C
* *
6752820 TAAACCTTAAACCTTAAAC-C
1 TAAATCTTAAACCCTAAACTC
*
6752840 TAAAATCTTAAACCATAAAC
1 T-AAATCTTAAACCCTAAAC
6752860 CCAAAACATT
Statistics
Matches: 89, Mismatches: 16, Indels: 32
0.65 0.12 0.23
Matches are distributed among these distances:
14 5 0.06
15 4 0.04
16 2 0.02
19 1 0.01
20 7 0.08
21 51 0.57
22 3 0.03
24 3 0.03
25 13 0.15
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.24
Consensus pattern (21 bp):
TAAATCTTAAACCCTAAACTC
Found at i:6752858 original size:7 final size:7
Alignment explanation
Indices: 6752806--6752902 Score: 61
Period size: 7 Copynumber: 13.9 Consensus size: 7
6752796 AATAATATCA
*
6752806 TAAACCC
1 TAAACCT
6752813 TAAATCC-
1 TAAA-CCT
6752820 TAAACCT
1 TAAACCT
6752827 TAAACCT
1 TAAACCT
6752834 TAAACCT
1 TAAACCT
* *
6752841 AAAATCT
1 TAAACCT
*
6752848 TAAACCA
1 TAAACCT
*
6752855 TAAACCC
1 TAAACCT
* *
6752862 AAAACAT
1 TAAACCT
*
6752869 TAAACCC
1 TAAACCT
* *
6752876 AAAACAT
1 TAAACCT
*
6752883 TAAACCC
1 TAAACCT
* *
6752890 CAAACAT
1 TAAACCT
6752897 TAAACC
1 TAAACC
6752903 CAAAACCATA
Statistics
Matches: 65, Mismatches: 23, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
6 2 0.03
7 61 0.94
8 2 0.03
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCT
Found at i:6752860 original size:21 final size:20
Alignment explanation
Indices: 6752806--6752874 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 20
6752796 AATAATATCA
* *
6752806 TAAACCCTAAATCCTAAACCT
1 TAAACCATAAA-CCTAAAACT
*
6752827 TAAACCTTAAACCTAAAATCT
1 TAAACCATAAACCTAAAA-CT
*
6752848 TAAACCATAAACCCAAAACAT
1 TAAACCATAAACCTAAAAC-T
6752869 TAAACC
1 TAAACC
6752875 CAAAACATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.17
21 35 0.83
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (20 bp):
TAAACCATAAACCTAAAACT
Found at i:6752880 original size:21 final size:21
Alignment explanation
Indices: 6752761--6752880 Score: 55
Period size: 21 Copynumber: 5.5 Consensus size: 21
6752751 CTAGAATCTC
* *
6752761 AAACCCAAAACTCAAAACCTT
1 AAACCCAAAACCCAAAACATT
* * * *
6752782 AAAACCTAAACTCAAATAATATCAT
1 AAACCCAAAAC-CCAA-AACAT--T
* * * *
6752807 AAACCCTAAATCCTAAACCTT
1 AAACCCAAAACCCAAAACATT
** *
6752828 AAACCTTAAACCTAAAATC-TT
1 AAACCCAAAACCCAAAA-CATT
6752849 AAA-CCATAAACCCAAAACATT
1 AAACCCA-AAACCCAAAACATT
6752870 AAACCCAAAAC
1 AAACCCAAAAC
6752881 ATTAAACCCC
Statistics
Matches: 72, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
20 2 0.03
21 46 0.64
22 6 0.08
23 6 0.08
24 2 0.03
25 10 0.14
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (21 bp):
AAACCCAAAACCCAAAACATT
Found at i:6752880 original size:28 final size:28
Alignment explanation
Indices: 6752849--6752914 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
6752839 CTAAAATCTT
6752849 AAACCATAAACCCAAAACATTAAACCCA
1 AAACCATAAACCCAAAACATTAAACCCA
*
6752877 AAA-CATTAAACCCCAAACATTAAACCCA
1 AAACCA-TAAACCCAAAACATTAAACCCA
6752905 AAACCATAAA
1 AAACCATAAA
6752915 TAATAAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 2 0.06
28 31 0.89
29 2 0.06
ACGTcount: A:0.58, C:0.30, G:0.00, T:0.12
Consensus pattern (28 bp):
AAACCATAAACCCAAAACATTAAACCCA
Found at i:6752914 original size:14 final size:14
Alignment explanation
Indices: 6752855--6752908 Score: 99
Period size: 14 Copynumber: 3.9 Consensus size: 14
6752845 TCTTAAACCA
6752855 TAAACCCAAAACAT
1 TAAACCCAAAACAT
6752869 TAAACCCAAAACAT
1 TAAACCCAAAACAT
*
6752883 TAAACCCCAAACAT
1 TAAACCCAAAACAT
6752897 TAAACCCAAAAC
1 TAAACCCAAAAC
6752909 CATAAATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.56, C:0.31, G:0.00, T:0.13
Consensus pattern (14 bp):
TAAACCCAAAACAT
Found at i:6753412 original size:22 final size:23
Alignment explanation
Indices: 6753376--6753418 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6753366 AAATCATAAA
* *
6753376 TAATAAACCATAAACCCTAAAAT
1 TAATAAACCACAAACACTAAAAT
6753399 TAATAAA-CACAAACACTAAA
1 TAATAAACCACAAACACTAAA
6753419 CCTTTAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.60, C:0.21, G:0.00, T:0.19
Consensus pattern (23 bp):
TAATAAACCACAAACACTAAAAT
Found at i:6753588 original size:23 final size:23
Alignment explanation
Indices: 6753547--6753590 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
6753537 ACTCTAAATC
*
6753547 TAAAATCTTAAACATTAAACATT
1 TAAAATCTTAAACACTAAACATT
*
6753570 TAAAATCTTAAACCCTAAACA
1 TAAAATCTTAAACACTAAACA
6753591 CTAAACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAAATCTTAAACACTAAACATT
Found at i:6754112 original size:43 final size:43
Alignment explanation
Indices: 6754021--6754112 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
6754011 AAAAAACGCT
**
6754021 ACTAAAGAACATGACCTTTAACGACGCTTTACCCACAAATGCC
1 ACTAAAGAACATGACCTTTAACGACGCTTTACCCACAAACACC
* * * *
6754064 GCTAAAGAACATGACCTTTAGCGGCGCTTTTA-TCACAAACACC
1 ACTAAAGAACATGACCTTTAACGACGC-TTTACCCACAAACACC
6754107 ACTAAA
1 ACTAAA
6754113 TAACTTTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 37 0.90
44 4 0.10
ACGTcount: A:0.37, C:0.28, G:0.13, T:0.22
Consensus pattern (43 bp):
ACTAAAGAACATGACCTTTAACGACGCTTTACCCACAAACACC
Found at i:6757113 original size:27 final size:27
Alignment explanation
Indices: 6757070--6757122 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
6757060 CCATAAAATA
*
6757070 AAAACCTAAGATAAAACTAGAAACCTT
1 AAAACCTAAGATAAAACCAGAAACCTT
* *
6757097 AAAACCT-ATATATAAACCATAAACCT
1 AAAACCTAAGATA-AAACCAGAAACCT
6757123 AAACTCGAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.55, C:0.21, G:0.04, T:0.21
Consensus pattern (27 bp):
AAAACCTAAGATAAAACCAGAAACCTT
Found at i:6757199 original size:40 final size:40
Alignment explanation
Indices: 6757162--6757250 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
6757152 CCCTAAACTC
* * **
6757162 TAAACATTATAATTATATTATAAACCCTAAATATAAACCT
1 TAAACACTATAATTATATCATAAACAATAAATATAAACCT
*
6757202 TAAACACTATAATTATATCATAAACAATAAATATAAACCG
1 TAAACACTATAATTATATCATAAACAATAAATATAAACCT
*
6757242 TAAAAACTA
1 TAAACACTA
6757251 ATGAAAAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (40 bp):
TAAACACTATAATTATATCATAAACAATAAATATAAACCT
Found at i:6757225 original size:20 final size:20
Alignment explanation
Indices: 6757162--6757227 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
6757152 CCCTAAACTC
* *
6757162 TAAACATTATAATTATATTA
1 TAAACACTATAATTATATCA
* * * *
6757182 TAAACCCTA-AATATAAACCT
1 TAAACACTATAAT-TATATCA
6757202 TAAACACTATAATTATATCA
1 TAAACACTATAATTATATCA
6757222 TAAACA
1 TAAACA
6757228 ATAAATATAA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAACACTATAATTATATCA
Found at i:6757278 original size:20 final size:20
Alignment explanation
Indices: 6757260--6757461 Score: 114
Period size: 20 Copynumber: 10.3 Consensus size: 20
6757250 AATGAAAAAC
6757260 TAAACCATAAACCCTAAA-A
1 TAAACCATAAACCCTAAATA
* * *
6757279 TATAAGCATAAATCCTAATTA
1 TA-AACCATAAACCCTAAATA
* * * *
6757300 T-ATCC-TAAATCTTAAACA
1 TAAACCATAAACCCTAAATA
* *
6757318 CTAAACC-TAAA-CTTAAACA
1 -TAAACCATAAACCCTAAATA
* *
6757337 CAAAGCACTAAACCCTAAATA
1 TAAACCA-TAAACCCTAAATA
* *
6757358 TAAATCATAAACCATAAATA
1 TAAACCATAAACCCTAAATA
* *
6757378 TAAACCTTAAACACTATAAT-
1 TAAACCATAAACCCTA-AATA
* *
6757398 TATATCATAAACCCTAAATA
1 TAAACCATAAACCCTAAATA
*
6757418 TAAACCCTAAACCCT-AATA
1 TAAACCATAAACCCTAAATA
* * * *
6757437 AAAAAC-TAAACCATAAACA
1 TAAACCATAAACCCTAAATA
6757456 TAAACC
1 TAAACC
6757462 CTTAAATATA
Statistics
Matches: 140, Mismatches: 33, Indels: 20
0.73 0.17 0.10
Matches are distributed among these distances:
18 21 0.15
19 31 0.22
20 72 0.51
21 16 0.11
ACGTcount: A:0.53, C:0.23, G:0.01, T:0.23
Consensus pattern (20 bp):
TAAACCATAAACCCTAAATA
Found at i:6757422 original size:13 final size:13
Alignment explanation
Indices: 6757404--6757428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6757394 TAATTATATC
6757404 ATAAACCCTAAAT
1 ATAAACCCTAAAT
6757417 ATAAACCCTAAA
1 ATAAACCCTAAA
6757429 CCCTAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (13 bp):
ATAAACCCTAAAT
Found at i:6757552 original size:21 final size:22
Alignment explanation
Indices: 6757528--6757607 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 22
6757518 CACTAAACCT
6757528 TAAA-TTATAAACCCTAAAATA
1 TAAACTTATAAACCCTAAAATA
*
6757549 TAAACCTTA-AAACCATAAAA-A
1 TAAA-CTTATAAACCCTAAAATA
* * *
6757570 TAAACCT-TAAACCTTATAAT-
1 TAAACTTATAAACCCTAAAATA
6757590 TAAAC--ATAAACCCTAAAA
1 TAAACTTATAAACCCTAAAA
6757608 CTAGAATTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
19 10 0.21
20 16 0.33
21 9 0.19
22 10 0.21
23 3 0.06
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAACTTATAAACCCTAAAATA
Found at i:6757566 original size:15 final size:14
Alignment explanation
Indices: 6757521--6757560 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
6757511 CACTAAACAC
*
6757521 TAAACCTTAAATTA
1 TAAACCTTAAAATA
*
6757535 TAAACCCTAAAATA
1 TAAACCTTAAAATA
6757549 TAAACCTTAAAA
1 TAAACCTTAAAA
6757561 CCATAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAACCTTAAAATA
Found at i:6757630 original size:7 final size:7
Alignment explanation
Indices: 6757618--6757706 Score: 51
Period size: 7 Copynumber: 12.4 Consensus size: 7
6757608 CTAGAATTAA
6757618 AAACCAT
1 AAACCAT
6757625 AAACCAT
1 AAACCAT
*
6757632 AAACCCT
1 AAACCAT
6757639 AAAACC-T
1 -AAACCAT
6757646 AAA-CAT
1 AAACCAT
6757652 AAACCCTCATT
1 AAA--C-CA-T
* *
6757663 ATATCAT
1 AAACCAT
6757670 AAACCAT
1 AAACCAT
6757677 AAA-CAT
1 AAACCAT
6757683 AAACACA-
1 AAAC-CAT
*
6757690 AAACCTT
1 AAACCAT
*
6757697 AAACCTT
1 AAACCAT
6757704 AAA
1 AAA
6757707 ATAAAAACCT
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
5 1 0.02
6 14 0.21
7 37 0.56
8 9 0.14
10 2 0.03
11 3 0.05
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCAT
Found at i:6757654 original size:20 final size:22
Alignment explanation
Indices: 6757617--6757658 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
6757607 ACTAGAATTA
6757617 AAAACCATAAACCATAAACCCT
1 AAAACCATAAACCATAAACCCT
6757639 AAAACC-TAAA-CATAAACCCT
1 AAAACCATAAACCATAAACCCT
6757659 CATTATATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.50
21 4 0.20
22 6 0.30
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.14
Consensus pattern (22 bp):
AAAACCATAAACCATAAACCCT
Found at i:6757900 original size:40 final size:40
Alignment explanation
Indices: 6757809--6757918 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
6757799 CCTTAAACCC
* * **
6757809 TAAACCCTAAACATTATAATTATATTATAAACCCTAAAAA
1 TAAACCCTAAACACTATAATTATATCATAAACAATAAAAA
* * * **
6757849 TCAACCTTAAACACTGTAATTATATCATAAACAATAATTA
1 TAAACCCTAAACACTATAATTATATCATAAACAATAAAAA
* * *
6757889 TAAACCGTAAAC-C-CTAATTATATCCTAAAC
1 TAAACCCTAAACACTATAATTATATCATAAAC
6757919 CTTAAACCCT
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
38 15 0.26
39 1 0.02
40 41 0.72
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (40 bp):
TAAACCCTAAACACTATAATTATATCATAAACAATAAAAA
Found at i:6757919 original size:18 final size:18
Alignment explanation
Indices: 6757865--6757919 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
6757855 TTAAACACTG
* *
6757865 TAATTATATCATAAACAA
1 TAATTATATCCTAAACCA
* *
6757883 TAATTATAAACCGTAAACCC
1 TAATTAT-ATCC-TAAACCA
6757903 TAATTATATCCTAAACC
1 TAATTATATCCTAAACC
6757920 TTAAACCCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 13 0.43
19 5 0.17
20 12 0.40
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (18 bp):
TAATTATATCCTAAACCA
Found at i:6757940 original size:21 final size:21
Alignment explanation
Indices: 6757914--6757974 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
6757904 AATTATATCC
6757914 TAAACCTTAAACCCTAAACCT
1 TAAACCTTAAACCCTAAACCT
* *
6757935 TAAACCATTAAACCTTATA-CT
1 TAAACC-TTAAACCCTAAACCT
*
6757956 TAAA-TTATAAACCCTAAAC
1 TAAACCT-TAAACCCTAAAC
6757975 TCAAACCATC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 1 0.03
20 9 0.28
21 12 0.38
22 10 0.31
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAACCTTAAACCCTAAACCT
Found at i:6757947 original size:8 final size:7
Alignment explanation
Indices: 6757914--6757951 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
6757904 AATTATATCC
6757914 TAAACCT
1 TAAACCT
*
6757921 TAAACCC
1 TAAACCT
6757928 TAAACCT
1 TAAACCT
6757935 TAAACCAT
1 TAAACC-T
6757943 TAAACCT
1 TAAACCT
6757950 TA
1 TA
6757952 TACTTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAACCT
Found at i:6758000 original size:20 final size:21
Alignment explanation
Indices: 6757977--6758020 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
6757967 CCCTAAACTC
6757977 AAACCATCAAA-CCTAAA-TAT
1 AAACCAT-AAATCCTAAATTAT
*
6757997 AAACCGTAAATCCTAAATTAT
1 AAACCATAAATCCTAAATTAT
6758018 AAA
1 AAA
6758021 TACTAAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 12 0.57
21 6 0.29
ACGTcount: A:0.55, C:0.20, G:0.02, T:0.23
Consensus pattern (21 bp):
AAACCATAAATCCTAAATTAT
Found at i:6758033 original size:14 final size:14
Alignment explanation
Indices: 6757985--6758041 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 14
6757975 TCAAACCATC
6757985 AAACC-TAAATA-T
1 AAACCATAAATACT
* *
6757997 AAACCGTAAATCCT
1 AAACCATAAATACT
**
6758011 AAATTATAAATACT
1 AAACCATAAATACT
*
6758025 AAACCATAAAGACT
1 AAACCATAAATACT
6758039 AAA
1 AAA
6758042 ACTAAAATCA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
12 5 0.14
13 5 0.14
14 25 0.71
ACGTcount: A:0.56, C:0.18, G:0.04, T:0.23
Consensus pattern (14 bp):
AAACCATAAATACT
Found at i:6758087 original size:7 final size:7
Alignment explanation
Indices: 6758077--6758155 Score: 74
Period size: 7 Copynumber: 11.7 Consensus size: 7
6758067 CAATTAAATT
6758077 CTAAACC
1 CTAAACC
6758084 CT-AACC
1 CTAAACC
6758090 CTAAACC
1 CTAAACC
* *
6758097 ATAAACT
1 CTAAACC
6758104 CTAAACC
1 CTAAACC
*
6758111 CTAAACA
1 CTAAACC
6758118 CTAAA-C
1 CTAAACC
*
6758124 CTAAACT
1 CTAAACC
*
6758131 C-AAACA
1 CTAAACC
* *
6758137 CAAAACA
1 CTAAACC
6758144 CTAAACC
1 CTAAACC
6758151 CTAAA
1 CTAAA
6758156 TATAAATCAT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
6 16 0.27
7 43 0.73
ACGTcount: A:0.51, C:0.34, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:6758106 original size:27 final size:27
Alignment explanation
Indices: 6758071--6758155 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
6758061 ACCCAACAAT
* *
6758071 TAAATTCTAAACCCT-AACCCTAAACC
1 TAAACTCTAAACCCTAAACACTAAACC
6758097 ATAAACTCTAAACCCTAAACACTAAACC
1 -TAAACTCTAAACCCTAAACACTAAACC
* *
6758125 TAAACTC-AAACACAAAACACTAAACCC
1 TAAACTCTAAACCCTAAACACTAAA-CC
6758152 TAAA
1 TAAA
6758156 TATAAATCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 15 0.29
27 27 0.52
28 10 0.19
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.18
Consensus pattern (27 bp):
TAAACTCTAAACCCTAAACACTAAACC
Found at i:6758161 original size:13 final size:14
Alignment explanation
Indices: 6758158--6758188 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
6758148 ACCCTAAATA
6758158 TAAATCATAAACCT
1 TAAATCATAAACCT
6758172 TAAAT-ATAAACCT
1 TAAATCATAAACCT
6758185 TAAA
1 TAAA
6758189 CACTGTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAATCATAAACCT
Found at i:6758168 original size:20 final size:20
Alignment explanation
Indices: 6758086--6758261 Score: 94
Period size: 20 Copynumber: 8.8 Consensus size: 20
6758076 TCTAAACCCT
*
6758086 AACCCTAAACCATAAACTC-TA
1 AACCCTAAA-TATAAAC-CATA
*
6758107 AACCCTAAACACTAAACC-TA
1 AACCCTAAATA-TAAACCATA
* * * *
6758127 AACTC-AAACACAAAACACTA
1 AACCCTAAATATAAACCA-TA
*
6758147 AACCCTAAATATAAATCATA
1 AACCCTAAATATAAACCATA
* *
6758167 AACCTTAAATATAAACCTTA
1 AACCCTAAATATAAACCATA
* * * **
6758187 AACACTGTAAT-TATATTATA
1 AACCCT-AAATATAAACCATA
*
6758207 AACCCTAAATATAAACCCTA
1 AACCCTAAATATAAACCATA
* *
6758227 AACCCT-AATAAAAAAC-TA
1 AACCCTAAATATAAACCATA
* *
6758245 AACCATAAACATAAACC
1 AACCCTAAATATAAACC
6758262 CTTATAAACC
Statistics
Matches: 119, Mismatches: 29, Indels: 16
0.73 0.18 0.10
Matches are distributed among these distances:
18 11 0.09
19 23 0.19
20 59 0.50
21 26 0.22
ACGTcount: A:0.53, C:0.26, G:0.01, T:0.21
Consensus pattern (20 bp):
AACCCTAAATATAAACCATA
Found at i:6758221 original size:13 final size:13
Alignment explanation
Indices: 6758203--6758228 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6758193 GTAATTATAT
6758203 TATAAACCCTAAA
1 TATAAACCCTAAA
6758216 TATAAACCCTAAA
1 TATAAACCCTAAA
6758229 CCCTAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
TATAAACCCTAAA
Found at i:6758382 original size:20 final size:20
Alignment explanation
Indices: 6758325--6758383 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
6758315 CCTTTAATTA
*
6758325 TAAACACTAAAATCTAAACCT
1 TAAACCCTAAAAT-TAAACCT
* * *
6758346 TAAAACATAAAAATAAACCT
1 TAAACCCTAAAATTAAACCT
*
6758366 TAAACCCTACAATTAAAC
1 TAAACCCTAAAATTAAAC
6758384 AGAAACCCTG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
20 21 0.70
21 9 0.30
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (20 bp):
TAAACCCTAAAATTAAACCT
Found at i:6758599 original size:20 final size:20
Alignment explanation
Indices: 6758576--6758641 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
6758566 ACCCTAAACC
6758576 TAAACATTATAATTATATTA
1 TAAACATTATAATTATATTA
** * *
6758596 TAAACCCTA-AATATAAACCT-
1 TAAACATTATAAT-TATA-TTA
*
6758616 TAAACATTATAATTATATCA
1 TAAACATTATAATTATATTA
6758636 TAAACA
1 TAAACA
6758642 ATAAATATAA
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
19 3 0.09
20 26 0.79
21 4 0.12
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAACATTATAATTATATTA
Found at i:6758613 original size:33 final size:35
Alignment explanation
Indices: 6758563--6758632 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 35
6758553 ACACAAACCT
* *
6758563 TAAACCCTAAACCTAAACATTATA-ATTAT-ATTA
1 TAAACCCTAAACATAAACATTAAACATTATAATTA
* *
6758596 TAAACCCTAAATATAAACCTTAAACATTATAATTA
1 TAAACCCTAAACATAAACATTAAACATTATAATTA
6758631 TA
1 TA
6758633 TCATAAACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 20 0.65
34 5 0.16
35 6 0.19
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (35 bp):
TAAACCCTAAACATAAACATTAAACATTATAATTA
Found at i:6758620 original size:40 final size:39
Alignment explanation
Indices: 6758570--6758659 Score: 135
Period size: 40 Copynumber: 2.3 Consensus size: 39
6758560 CCTTAAACCC
* **
6758570 TAAACCTAAACATTATAATTATATTATAAACCCTAAATA
1 TAAACCTAAACATTATAATTATATCATAAACAATAAATA
6758609 TAAACCTTAAACATTATAATTATATCATAAACAATAAATA
1 TAAACC-TAAACATTATAATTATATCATAAACAATAAATA
6758649 TAAACCGTAAA
1 TAAACC-TAAA
6758660 AACTAATGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 6 0.13
40 40 0.87
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.31
Consensus pattern (39 bp):
TAAACCTAAACATTATAATTATATCATAAACAATAAATA
Found at i:6758702 original size:20 final size:20
Alignment explanation
Indices: 6758673--6758716 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
6758663 TAATGAAAAA
*
6758673 CTAAACCATAAACATAAACC
1 CTAAAACATAAACATAAACC
*
6758693 CTAAAACATAAGCATAAACC
1 CTAAAACATAAACATAAACC
6758713 CTAA
1 CTAA
6758717 TTATATCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.27, G:0.02, T:0.16
Consensus pattern (20 bp):
CTAAAACATAAACATAAACC
Found at i:6758781 original size:20 final size:20
Alignment explanation
Indices: 6758680--6758854 Score: 91
Period size: 20 Copynumber: 8.9 Consensus size: 20
6758670 AAACTAAACC
*
6758680 ATAAACA-TAAACCCTAAAAC
1 ATAAACACTAAACCCT-AAAT
* *
6758700 ATAAGCA-TAAACCCTAATT
1 ATAAACACTAAACCCTAAAT
* * *
6758719 AT-ATC-CTAAATCCTAAACC
1 ATAAACACTAAACCCTAAA-T
* * *
6758738 CTAAACA-TAAACTC-AAAC
1 ATAAACACTAAACCCTAAAT
*
6758756 ACTAAACACTAAACCCTGAAT
1 A-TAAACACTAAACCCTAAAT
*
6758777 ATAAATCA-TAAACCGTAAAT
1 ATAAA-CACTAAACCCTAAAT
*
6758797 ATAAAC-CTTAAACACTATAAT
1 ATAAACAC-TAAACCCTA-AAT
*
6758818 -TATATCA-TAAACCCTAAAT
1 ATA-AACACTAAACCCTAAAT
*
6758837 ATAAACCCTAAACCCTAA
1 ATAAACACTAAACCCTAA
6758855 TGCAAAACTA
Statistics
Matches: 117, Mismatches: 23, Indels: 30
0.69 0.14 0.18
Matches are distributed among these distances:
18 12 0.10
19 20 0.17
20 75 0.64
21 10 0.09
ACGTcount: A:0.51, C:0.25, G:0.02, T:0.23
Consensus pattern (20 bp):
ATAAACACTAAACCCTAAAT
Found at i:6758802 original size:40 final size:39
Alignment explanation
Indices: 6758758--6758853 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 39
6758748 ACTCAAACAC
*
6758758 TAAACACTAAACCCT-GAATATAAATCATAAACCGTAAATA
1 TAAAC-CTAAACCCTAGAAT-TAAATCATAAACCCTAAATA
* * *
6758798 TAAACCTTAAACACTATAATTATATCATAAACCCTAAATA
1 TAAACC-TAAACCCTAGAATTAAATCATAAACCCTAAATA
6758838 TAAACCCTAAACCCTA
1 TAAA-CCTAAACCCTA
6758854 ATGCAAAACT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
39 1 0.02
40 42 0.88
41 5 0.10
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (39 bp):
TAAACCTAAACCCTAGAATTAAATCATAAACCCTAAATA
Found at i:6758842 original size:13 final size:13
Alignment explanation
Indices: 6758824--6758848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6758814 TAATTATATC
6758824 ATAAACCCTAAAT
1 ATAAACCCTAAAT
6758837 ATAAACCCTAAA
1 ATAAACCCTAAA
6758849 CCCTAATGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (13 bp):
ATAAACCCTAAAT
Found at i:6758962 original size:21 final size:20
Alignment explanation
Indices: 6758924--6759054 Score: 63
Period size: 21 Copynumber: 6.4 Consensus size: 20
6758914 CCTCAAACAC
* *
6758924 TAAACACTAAACCTTAAATTA
1 TAAACCCTAAAAC-TAAATTA
6758945 TAAACCCTAAAATCTAAACCTTA
1 TAAACCCTAAAA-CTAAA--TTA
* * *
6758968 -AAACCATAAAAATAAACCT-
1 TAAACCCTAAAACTAAA-TTA
* * * *
6758987 TAAACCTTACAATTAAA-CA
1 TAAACCCTAAAACTAAATTA
*
6759006 TAAACACTAAAACTAGAATTA
1 TAAACCCTAAAACTA-AATTA
* *
6759027 AAAACCCTAAAACCTAAA-CA
1 TAAACCCTAAAA-CTAAATTA
6759047 TAAACCCT
1 TAAACCCT
6759055 CATTATATCA
Statistics
Matches: 84, Mismatches: 18, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
19 11 0.13
20 25 0.30
21 31 0.37
22 14 0.17
23 3 0.04
ACGTcount: A:0.54, C:0.23, G:0.01, T:0.22
Consensus pattern (20 bp):
TAAACCCTAAAACTAAATTA
Found at i:6759149 original size:27 final size:27
Alignment explanation
Indices: 6759106--6759158 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
6759096 CCTTAAAATA
*
6759106 AAAACCTAAGATAAAACTAGAAACCTT
1 AAAACCTAAGATAAAACCAGAAACCTT
* *
6759133 AAAACCT-ATATATAAACCATAAACCT
1 AAAACCTAAGATA-AAACCAGAAACCT
6759159 AAACTCAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.55, C:0.21, G:0.04, T:0.21
Consensus pattern (27 bp):
AAAACCTAAGATAAAACCAGAAACCTT
Found at i:6759262 original size:68 final size:67
Alignment explanation
Indices: 6759144--6759306 Score: 179
Period size: 68 Copynumber: 2.4 Consensus size: 67
6759134 AAACCTATAT
* * *
6759144 ATAAACCATAAACCTAAACTC-AAACACTAAACACTAAACCCTAACTACAAACCCTGAACTTTAA
1 ATAAACC-TAAACCTAAACACTAAACACTAAACACTAAACCCTAACTACAAACCCTAAACCTTAA
6759208 ATC
65 ATC
** *
6759211 ATAAACCTTAAACCATAAACACTAAACTTTAAACCCTAAA-CCTAAAC-ACAAACCCTAAACCTT
1 ATAAACC-TAAACC-TAAACACTAAACACTAAACACTAAACCCT-AACTACAAACCCTAAACCTT
6759274 AAATC
63 AAATC
*
6759279 ATAAACACTAAACCCTAAAACCCTAAAC
1 ATAAAC-CTAAA-CCT-AAACACTAAAC
6759307 CATAATGAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
67 13 0.16
68 39 0.48
69 30 0.37
ACGTcount: A:0.50, C:0.30, G:0.01, T:0.19
Consensus pattern (67 bp):
ATAAACCTAAACCTAAACACTAAACACTAAACACTAAACCCTAACTACAAACCCTAAACCTTAAA
TC
Found at i:6759306 original size:7 final size:7
Alignment explanation
Indices: 6759145--6759476 Score: 94
Period size: 7 Copynumber: 47.4 Consensus size: 7
6759135 AACCTATATA
*
6759145 TAAACCA
1 TAAACCC
6759152 TAAA-CC
1 TAAACCC
*
6759158 TAAACTC
1 TAAACCC
*
6759165 -AAACAC
1 TAAACCC
*
6759171 TAAACAC
1 TAAACCC
6759178 TAAACCC
1 TAAACCC
*
6759185 T-AACTAC
1 TAAAC-CC
6759192 -AAACCC
1 TAAACCC
* **
6759198 TGAACTT
1 TAAACCC
* *
6759205 TAAATCA
1 TAAACCC
*
6759212 TAAACCT
1 TAAACCC
*
6759219 TAAACCA
1 TAAACCC
*
6759226 TAAACAC
1 TAAACCC
**
6759233 TAAACTT
1 TAAACCC
6759240 TAAACCC
1 TAAACCC
6759247 TAAA-CC
1 TAAACCC
*
6759253 TAAACAC
1 TAAACCC
6759260 -AAACCC
1 TAAACCC
*
6759266 TAAACCT
1 TAAACCC
* *
6759273 TAAATCA
1 TAAACCC
*
6759280 TAAACAC
1 TAAACCC
6759287 TAAACCC
1 TAAACCC
6759294 TAAAACCC
1 T-AAACCC
*
6759302 TAAACCATAA
1 TAAACC---C
**
6759312 TGAAAAAC
1 T-AAACCC
*
6759320 TAAACCA
1 TAAACCC
*
6759327 TAAA-CA
1 TAAACCC
6759333 TAAACCC
1 TAAACCC
*
6759340 TTATTATATCC
1 -TA--A-ACCC
*
6759351 TAAACCA
1 TAAACCC
6759358 T-AA-CC
1 TAAACCC
*
6759363 TCAAACAC
1 T-AAACCC
6759371 TAAACCC
1 TAAACCC
* *
6759378 AAAACCA
1 TAAACCC
6759385 TAAACCC
1 TAAACCC
*
6759392 AAAACCC
1 TAAACCC
*
6759399 TAAA-CA
1 TAAACCC
*
6759405 TAAACTC
1 TAAACCC
*
6759412 -AAACAC
1 TAAACCC
* *
6759418 TAAATCT
1 TAAACCC
* *
6759425 TAAATCT
1 TAAACCC
6759432 TAAACCC
1 TAAACCC
*
6759439 TAAACAC
1 TAAACCC
*
6759446 -AAACAC
1 TAAACCC
*
6759452 TAAACCT
1 TAAACCC
*
6759459 TAAAACCT
1 T-AAACCC
6759467 TAAACCC
1 TAAACCC
6759474 TAA
1 TAA
6759477 TAAAAAAACT
Statistics
Matches: 237, Mismatches: 64, Indels: 48
0.68 0.18 0.14
Matches are distributed among these distances:
5 2 0.01
6 49 0.21
7 156 0.66
8 20 0.08
10 4 0.02
11 6 0.03
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:6759323 original size:54 final size:53
Alignment explanation
Indices: 6759212--6759337 Score: 148
Period size: 54 Copynumber: 2.3 Consensus size: 53
6759202 CTTTAAATCA
* * *
6759212 TAAACCTTAAACCATAAACACTAAACTTTAAACCCTAAACCTAAACACAAACCC
1 TAAACCTTAAA-CATAAACACTAAACCTAAAACCCTAAACCTAAACACAAACAC
**
6759266 TAAACCTTAAATCATAAACACTAAACCCTAAAACCCTAAACCATAATGA-AAA-AC
1 TAAACCTTAAA-CATAAACACTAAA-CCTAAAACCCTAAACC-TAAACACAAACAC
*
6759320 TAAACCATAAACATAAAC
1 TAAACCTTAAACATAAAC
6759338 CCTTATTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
53 7 0.11
54 35 0.56
55 17 0.27
56 4 0.06
ACGTcount: A:0.53, C:0.28, G:0.01, T:0.18
Consensus pattern (53 bp):
TAAACCTTAAACATAAACACTAAACCTAAAACCCTAAACCTAAACACAAACAC
Found at i:6759391 original size:620 final size:614
Alignment explanation
Indices: 6758110--6759391 Score: 1727
Period size: 620 Copynumber: 2.1 Consensus size: 614
6758100 AACTCTAAAC
6758110 CCTAAA-CACTAAA-CCTAAAC-TCAAACACAAAA-CACTAAACCCTAAATATAAATCATAAACC
1 CCTAAATC-CTAAACCCTAAACAT-AAACACAAAACCACTAAACCCTAAATATAAATCATAAACC
* * *
6758171 TTAAATATAAACCTTAAACACTGTAATTATATTATAAACCCTAAATATAAACCCTAAACCCTAAT
64 GTAAATATAAACCTTAAACACTATAATTATATCATAAACCCTAAATATAAACCCTAAACCCTAAT
6758236 AAAAAACTAAACCATAAACATAAACCCTTATAAACCCTGATTCTATCCTAAACTATAACCTCAAA
129 AAAAAACTAAACCATAAACATAAACCCTTATAAACCCTGATTCTATCCTAAACTATAACCTCAAA
* *
6758301 CAGTAAACACCAAACCTTTAATTATAAACACTAAAATCTAAACCTTAAAACATAAAAATAAACCT
194 CACTAAACACCAAACCTTAAATTATAAACACTAAAATCTAAACCTTAAAACATAAAAATAAACCT
* * *
6758366 TAAACCCTACAATTAAACAGAAACCCTGAAACTAGAATTAAAAACCCTAAACCCTAAACATAAAC
259 TAAACCCTACAATTAAACAGAAACACTAAAACTAGAATTAAAAACCCTAAAACCTAAACATAAAC
**
6758431 CCTCACTATATCATAAGTCATAAACATAAACACAAACCTTTAAACCTTAAAATAAAAACCTAAGA
324 CCTCACTATATCATAAACCATAAACATAAACACAAACCTTTAAACCTTAAAATAAAAACCTAAGA
* *
6758496 TAAAATTAGAAACCCTAAAACCTATATATAAACCATAAACCTAAACTCGAACACTAAACACAAAC
389 TAAAACTAGAAACCCTAAAACCTATATATAAACCATAAACCTAAACTCAAACACTAAACACAAAC
* ** * * *
6758561 CTTAAACCCTAAACCTAAACATTATAATTATATTATAAACCCTAAATATAAACCTTAAACATTAT
454 CTTAAACCCTAAACCTAAACATTATAATTAAACCATAAACACTAAATATAAACCCTAAACACTAT
** * *
6758626 AATTATATCATAAACAATAAATATAAACCGTAAAAACTAATGAAAAACTAAACCATAAACATAAA
519 AAACAAACCATAAACAATAAATATAAACCGTAAAAACTAA-GAAAAACTAAACCATAAACATAAA
* *
6758691 CCCTAAAACATAAGCATAAACCCTAATTATAT
583 CACTAAAACATAAACATAAACCCTAATTATAT
* *
6758723 CCTAAATCCTAAACCCTAAACATAAACTCAAACACTAAACACTAAACCCTGAATATAAATCATAA
1 CCTAAATCCTAAACCCTAAACATAAACACAAA-AC----CACTAAACCCTAAATATAAATCATAA
6758788 ACCGTAAATATAAACCTTAAACACTATAATTATATCATAAACCCTAAATATAAACCCTAAACCCT
61 ACCGTAAATATAAACCTTAAACACTATAATTATATCATAAACCCTAAATATAAACCCTAAACCCT
** * *
6758853 AATGCAAAACTAAACTATAAACATAAACCTTTATAAACCCTGATTCTATCCTAAACTATAACCTC
126 AATAAAAAACTAAACCATAAACATAAACCCTTATAAACCCTGATTCTATCCTAAACTATAACCTC
* *
6758918 AAACACTAAACACTAAACCTTAAATTATAAACCCTAAAATCTAAACCTTAAAACCATAAAAATAA
191 AAACACTAAACACCAAACCTTAAATTATAAACACTAAAATCTAAACCTTAAAA-CATAAAAATAA
* *
6758983 ACCTTAAACCTTACAATTAAACATAAACACTAAAACTAGAATTAAAAACCCTAAAACCTAAACAT
255 ACCTTAAACCCTACAATTAAACAGAAACACTAAAACTAGAATTAAAAACCCTAAAACCTAAACAT
*
6759048 AAACCCTCATTATATCATAAACCATAAACATAAACACAAAACC-TTAAACCTTAAAATAAAAACC
320 AAACCCTCACTATATCATAAACCATAAACATAAACAC-AAACCTTTAAACCTTAAAATAAAAACC
*
6759112 TAAGATAAAACTAGAAACCTTAAAACCTATATATAAACCATAAACCTAAACTCAAACACTAAACA
384 TAAGATAAAACTAGAAACCCTAAAACCTATATATAAACCATAAACCTAAACTCAAACACTAAACA
* * *
6759177 CTAAACCCTAACTACAAACCCTGAACTTTAAATCA-TA-AACCTTAAACCATAAACACTAAACTT
449 C-AAA-CCT---T--AAACCCTAAAC-CTAAA-CATTATAA--TTAAACCATAAACACTAAA-TA
* ** ** *
6759240 TAAACCCTAAAC-CTA-AACACAAACCCTAAACCTTAAATCATAAACAC-TAAACCCT-A-AAAC
502 TAAACCCTAAACACTATAA-ACAAACCATAAACAATAAAT-ATAAAC-CGTAAAAACTAAGAAAA
* ** * *
6759300 CCTAAACCATAATGA-AAA-ACTAAACCATAAACATAAACCCTTATTATAT
564 ACTAAACCATAAACATAAACACTAAAACATAAACATAAACCCTAATTATAT
*
6759349 CCTAAA-CC-ATAA-CCTCAAACACTAAACCCAAAACCA-TAAACCC
1 CCTAAATCCTA-AACCCT-AAACA-TAAACACAAAACCACTAAACCC
6759392 AAAACCCTAA
Statistics
Matches: 589, Mismatches: 51, Indels: 51
0.85 0.07 0.07
Matches are distributed among these distances:
613 11 0.02
614 16 0.03
615 2 0.00
620 204 0.35
621 191 0.32
622 8 0.01
623 3 0.01
624 4 0.01
625 11 0.02
626 43 0.07
627 3 0.01
628 27 0.05
629 8 0.01
630 33 0.06
631 24 0.04
632 1 0.00
ACGTcount: A:0.52, C:0.24, G:0.02, T:0.22
Consensus pattern (614 bp):
CCTAAATCCTAAACCCTAAACATAAACACAAAACCACTAAACCCTAAATATAAATCATAAACCGT
AAATATAAACCTTAAACACTATAATTATATCATAAACCCTAAATATAAACCCTAAACCCTAATAA
AAAACTAAACCATAAACATAAACCCTTATAAACCCTGATTCTATCCTAAACTATAACCTCAAACA
CTAAACACCAAACCTTAAATTATAAACACTAAAATCTAAACCTTAAAACATAAAAATAAACCTTA
AACCCTACAATTAAACAGAAACACTAAAACTAGAATTAAAAACCCTAAAACCTAAACATAAACCC
TCACTATATCATAAACCATAAACATAAACACAAACCTTTAAACCTTAAAATAAAAACCTAAGATA
AAACTAGAAACCCTAAAACCTATATATAAACCATAAACCTAAACTCAAACACTAAACACAAACCT
TAAACCCTAAACCTAAACATTATAATTAAACCATAAACACTAAATATAAACCCTAAACACTATAA
ACAAACCATAAACAATAAATATAAACCGTAAAAACTAAGAAAAACTAAACCATAAACATAAACAC
TAAAACATAAACATAAACCCTAATTATAT
Found at i:6759408 original size:20 final size:21
Alignment explanation
Indices: 6759372--6759414 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6759362 CTCAAACACT
6759372 AAACCCAAAACCATAAACCCA
1 AAACCCAAAACCATAAACCCA
* *
6759393 AAACCCTAAA-CATAAACTCA
1 AAACCCAAAACCATAAACCCA
6759413 AA
1 AA
6759415 CACTAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.58, C:0.33, G:0.00, T:0.09
Consensus pattern (21 bp):
AAACCCAAAACCATAAACCCA
Found at i:6759443 original size:34 final size:35
Alignment explanation
Indices: 6759392--6759476 Score: 111
Period size: 34 Copynumber: 2.5 Consensus size: 35
6759382 CCATAAACCC
* * * *
6759392 AAAACCCTAAA-CATAAACTCAAACACTAAATCTT
1 AAAACCTTAAACCCTAAACACAAACACTAAACCTT
*
6759426 -AAATCTTAAACCCTAAACACAAACACTAAACCTT
1 AAAACCTTAAACCCTAAACACAAACACTAAACCTT
6759460 AAAACCTTAAACCCTAA
1 AAAACCTTAAACCCTAA
6759477 TAAAAAAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
33 8 0.19
34 20 0.47
35 15 0.35
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (35 bp):
AAAACCTTAAACCCTAAACACAAACACTAAACCTT
Found at i:6759488 original size:34 final size:34
Alignment explanation
Indices: 6759350--6759489 Score: 99
Period size: 34 Copynumber: 4.1 Consensus size: 34
6759340 TTATTATATC
* * * * *
6759350 CTAAACCAT-AACCTCAAACACTAAACCCAAAAC
1 CTAAACCTTAAACCTTAAACCCTAAACACAAAAA
** * * * *
6759383 CATAAACCCAAAACCCTAAA-CATAAACTCAAACA
1 C-TAAACCTTAAACCTTAAACCCTAAACACAAAAA
* * *
6759417 CTAAATCTTAAATCTTAAACCCTAAACACAAACA
1 CTAAACCTTAAACCTTAAACCCTAAACACAAAAA
6759451 CTAAACCTTAAAACCTTAAACCCTAATA-A-AAAAA
1 CTAAACCTT-AAACCTTAAACCCTAA-ACACAAAAA
6759485 CTAAA
1 CTAAA
6759490 TTATAAACAT
Statistics
Matches: 83, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
33 14 0.17
34 45 0.54
35 23 0.28
36 1 0.01
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (34 bp):
CTAAACCTTAAACCTTAAACCCTAAACACAAAAA
Found at i:6759699 original size:21 final size:20
Alignment explanation
Indices: 6759675--6759719 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
6759665 AACTAAACCT
*
6759675 AAACATTAAACCCAAAACTCA
1 AAACACTAAACCCAAAACT-A
* *
6759696 AAACCCTAAACCCTAAACTA
1 AAACACTAAACCCAAAACTA
6759716 AAAC
1 AAAC
6759720 TACAAACCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.56, C:0.31, G:0.00, T:0.13
Consensus pattern (20 bp):
AAACACTAAACCCAAAACTA
Found at i:6759765 original size:27 final size:27
Alignment explanation
Indices: 6759735--6759815 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
6759725 ACCATAAGAA
6759735 TAAAACCTAAACACTAAATATAAACTT
1 TAAAACCTAAACACTAAATATAAACTT
* *
6759762 TAAAACCTAAATTA-TAAATTATAAACCT
1 TAAAACCTAAA-CACTAAA-TATAAACTT
* * *
6759790 T-AAACTTAAAACCCTAAACATAAACT
1 TAAAACCT-AAACACTAAATATAAACT
6759816 CAAACGCTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
27 26 0.60
28 17 0.40
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (27 bp):
TAAAACCTAAACACTAAATATAAACTT
Found at i:6759787 original size:20 final size:19
Alignment explanation
Indices: 6759742--6759789 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
6759732 GAATAAAACC
6759742 TAAACACTAAATATAAACTT
1 TAAAC-CTAAATATAAACTT
6759762 TAAAACCTAAATTATAAA-TT
1 T-AAACCTAAA-TATAAACTT
6759782 ATAAACCT
1 -TAAACCT
6759790 TAAACTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAACCTAAATATAAACTT
Found at i:6759932 original size:7 final size:7
Alignment explanation
Indices: 6759920--6759993 Score: 53
Period size: 7 Copynumber: 10.4 Consensus size: 7
6759910 CTAAACTACC
6759920 AACCTTA
1 AACCTTA
6759927 AACCTTCA
1 AACCTT-A
6759935 AA-CTTCA
1 AACCTT-A
6759942 AACCTTAA
1 AACCTT-A
*
6759950 AATCTTA
1 AACCTTA
*
6759957 AACCCTA
1 AACCTTA
*
6759964 AA-ATTA
1 AACCTTA
*
6759970 AACTTTA
1 AACCTTA
**
6759977 AACCAAA
1 AACCTTA
6759984 AACCTTA
1 AACCTTA
6759991 AAC
1 AAC
6759994 TCAAACACTA
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
6 4 0.08
7 36 0.69
8 12 0.23
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (7 bp):
AACCTTA
Found at i:6759946 original size:15 final size:15
Alignment explanation
Indices: 6759923--6759967 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
6759913 AACTACCAAC
*
6759923 CTTAAACCTTCAAA-
1 CTTAAACCTTAAAAT
6759937 CTTCAAACCTTAAAAT
1 CTT-AAACCTTAAAAT
*
6759953 CTTAAACCCTAAAAT
1 CTTAAACCTTAAAAT
6759968 TAAACTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 3 0.11
15 21 0.78
16 3 0.11
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
CTTAAACCTTAAAAT
Done.